ReviewBriefings in bioinformatics2009
FINDSITE: a combined evolution/structure-based approach to protein function prediction.
Review in Briefings in bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
57 citing papers in PubMed, 110 citations in OpenAlex.
- ViralBindPredict: empowering viral protein-ligand binding sites through deep learning and protein sequence-derived insights.GigaScience · 2026Article
- Repositioning Drugs: A Computational Approach.Current drug research reviews · 2026Review
- Evaluation of Small-Molecule Binding Site Prediction Methods on Membrane-Embedded Protein Interfaces.Journal of chemical information and modeling · 2025Article
- MKFGO: integrating multi-source knowledge fusion with pretrained language model for high-accuracy protein function prediction.Briefings in bioinformatics · 2025Article
- Article
- Structural bioinformatics for rational drug design.Research and practice in thrombosis and haemostasis · 2025Article
- Machine Learning for Protein Function Prediction.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Turbocharging protein binding site prediction with geometric attention, inter-resolution transfer learning, and homology-based augmentation.BMC bioinformatics · 2024Article
- Systematic computational strategies for identifying protein targets and lead discovery.RSC medicinal chemistry · 2024Review
- xProtCAS: A Toolkit for Extracting Conserved Accessible Surfaces from Protein Structures.Biomolecules · 2023Article
- BindWeb: A web server for ligand binding residue and pocket prediction from protein structures.Protein science : a publication of the Protein Society · 2022Article
- Implications of the Essential Role of Small Molecule Ligand Binding Pockets in Protein-Protein Interactions.The journal of physical chemistry. B · 2022Article
- Artificial intelligence in the prediction of protein-ligand interactions: recent advances and future directions.Briefings in bioinformatics · 2022Review
- CATH functional families predict functional sites in proteins.Bioinformatics (Oxford, England) · 2021Article
- Binding site matching in rational drug design: algorithms and applications.Briefings in bioinformatics · 2019Review
- A novel protein descriptor for the prediction of drug binding sites.BMC bioinformatics · 2019Article
- P2Rank: machine learning based tool for rapid and accurate prediction of ligand binding sites from protein structure.Journal of cheminformatics · 2018Article
- Pocket detection and interaction-weighted ligand-similarity search yields novel high-affinity binders for Myocilin-OLF, a protein implicated in glaucoma.Bioorganic & medicinal chemistry letters · 2017Article
- Virtual screening following rational drug design based approach for introducing new anti amyloid beta aggregation agent.Bioinformation · 2017Article
- Normal Modes Expose Active Sites in Enzymes.PLoS computational biology · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
A key challenge of the post-genomic era is the identification of the function(s) of all the molecules in a given organism. Here, we review the status of sequence and structure-based approaches to protein function inference and ligand screening that can provide functional insights for a significant fraction of the approximately 50% of ORFs of unassigned function in an average proteome. We then describe FINDSITE, a recently developed algorithm for ligand binding site prediction, ligand screening and molecular function prediction, which is based on binding site conservation across evolutionary distant proteins identified by threading. Importantly, FINDSITE gives comparable results when high-resolution experimental structures as well as predicted protein models are used.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.